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4FVL
Biol. Unit 2
Info
Asym.Unit (151 KB)
Biol.Unit 1 (73 KB)
Biol.Unit 2 (74 KB)
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(1)
Title
:
HUMAN COLLAGENASE 3 (MMP-13) FULL FORM WITH PEPTIDES FROM PRO-DOMAIN
Authors
:
E. A. Stura, L. Vera, R. Visse, H. Nagase, V. Dive
Date
:
29 Jun 12 (Deposition) - 21 Aug 13 (Release) - 05 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.44
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Protein-Peptide Complex, Collagenase, Cleavage With Mmp3, Hydrolase, Pro-Peptide, Metzincin, Zinc Metalloprotease, Collagen Cleavage, Collagen
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. A. Stura, R. Visse, P. Cuniasse, V. Dive, H. Nagase
Crystal Structure Of Full-Length Human Collagenase 3 (Mmp-13) With Peptides In The Active Site Defines Exosites In The Catalytic Domain.
Faseb J. V. 27 4395 2013
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Hetero Components
(3, 23)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
3h: GLYCEROL (GOLh)
3i: GLYCEROL (GOLi)
3j: GLYCEROL (GOLj)
4a: DI(HYDROXYETHYL)ETHER (PEGa)
4b: DI(HYDROXYETHYL)ETHER (PEGb)
4c: DI(HYDROXYETHYL)ETHER (PEGc)
4d: DI(HYDROXYETHYL)ETHER (PEGd)
4e: DI(HYDROXYETHYL)ETHER (PEGe)
4f: DI(HYDROXYETHYL)ETHER (PEGf)
4g: DI(HYDROXYETHYL)ETHER (PEGg)
4h: DI(HYDROXYETHYL)ETHER (PEGh)
4i: DI(HYDROXYETHYL)ETHER (PEGi)
5a: S-1,2-PROPANEDIOL (PGOa)
5aa: S-1,2-PROPANEDIOL (PGOaa)
5ab: S-1,2-PROPANEDIOL (PGOab)
5b: S-1,2-PROPANEDIOL (PGOb)
5c: S-1,2-PROPANEDIOL (PGOc)
5d: S-1,2-PROPANEDIOL (PGOd)
5e: S-1,2-PROPANEDIOL (PGOe)
5f: S-1,2-PROPANEDIOL (PGOf)
5g: S-1,2-PROPANEDIOL (PGOg)
5h: S-1,2-PROPANEDIOL (PGOh)
5i: S-1,2-PROPANEDIOL (PGOi)
5j: S-1,2-PROPANEDIOL (PGOj)
5k: S-1,2-PROPANEDIOL (PGOk)
5l: S-1,2-PROPANEDIOL (PGOl)
5m: S-1,2-PROPANEDIOL (PGOm)
5n: S-1,2-PROPANEDIOL (PGOn)
5o: S-1,2-PROPANEDIOL (PGOo)
5p: S-1,2-PROPANEDIOL (PGOp)
5q: S-1,2-PROPANEDIOL (PGOq)
5r: S-1,2-PROPANEDIOL (PGOr)
5s: S-1,2-PROPANEDIOL (PGOs)
5t: S-1,2-PROPANEDIOL (PGOt)
5u: S-1,2-PROPANEDIOL (PGOu)
5v: S-1,2-PROPANEDIOL (PGOv)
5w: S-1,2-PROPANEDIOL (PGOw)
5x: S-1,2-PROPANEDIOL (PGOx)
5y: S-1,2-PROPANEDIOL (PGOy)
5z: S-1,2-PROPANEDIOL (PGOz)
6a: ZINC ION (ZNa)
6b: ZINC ION (ZNb)
6c: ZINC ION (ZNc)
6d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
GOL
7
Ligand/Ion
GLYCEROL
4
PEG
4
Ligand/Ion
DI(HYDROXYETHYL)ETHER
5
PGO
12
Ligand/Ion
S-1,2-PROPANEDIOL
6
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(34, 34)
Info
All Sites
01: BC6 (SOFTWARE)
02: BC7 (SOFTWARE)
03: CC2 (SOFTWARE)
04: DC1 (SOFTWARE)
05: DC5 (SOFTWARE)
06: DC6 (SOFTWARE)
07: DC7 (SOFTWARE)
08: DC8 (SOFTWARE)
09: DC9 (SOFTWARE)
10: EC1 (SOFTWARE)
11: EC2 (SOFTWARE)
12: EC3 (SOFTWARE)
13: EC4 (SOFTWARE)
14: EC5 (SOFTWARE)
15: EC6 (SOFTWARE)
16: EC7 (SOFTWARE)
17: EC8 (SOFTWARE)
18: EC9 (SOFTWARE)
19: FC1 (SOFTWARE)
20: FC2 (SOFTWARE)
21: FC3 (SOFTWARE)
22: FC4 (SOFTWARE)
23: FC5 (SOFTWARE)
24: FC6 (SOFTWARE)
25: FC7 (SOFTWARE)
26: FC8 (SOFTWARE)
27: FC9 (SOFTWARE)
28: GC1 (SOFTWARE)
29: GC2 (SOFTWARE)
30: GC3 (SOFTWARE)
31: GC4 (SOFTWARE)
32: GC5 (SOFTWARE)
33: GC6 (SOFTWARE)
34: GC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
BC6
SOFTWARE
GLY A:439 , PGO A:517 , ASP B:128
BINDING SITE FOR RESIDUE PGO A 516
02
BC7
SOFTWARE
TYR A:440 , TRP A:455 , PGO A:516 , HOH A:675 , PRO B:127
BINDING SITE FOR RESIDUE PGO A 517
03
CC2
SOFTWARE
THR A:208 , SER A:210 , HOH A:680 , TRP B:455
BINDING SITE FOR RESIDUE PGO A 521
04
DC1
SOFTWARE
GLY A:248 , LYS A:324 , PRO A:331 , ASN A:332 , ARG A:333 , ARG A:350 , GLU D:33
BINDING SITE FOR RESIDUE PEG A 529
05
DC5
SOFTWARE
HIS B:222 , HIS B:226 , HIS B:232 , SER D:45 , HOH D:207
BINDING SITE FOR RESIDUE ZN B 501
06
DC6
SOFTWARE
HIS B:172 , ASP B:174 , HIS B:187 , HIS B:200
BINDING SITE FOR RESIDUE ZN B 502
07
DC7
SOFTWARE
ASP B:179 , GLY B:180 , SER B:182 , LEU B:184 , ASP B:202 , GLU B:205
BINDING SITE FOR RESIDUE CA B 503
08
DC8
SOFTWARE
ASP B:162 , ASN B:194 , GLY B:196 , ASP B:198 , HOH B:633 , HOH B:713
BINDING SITE FOR RESIDUE CA B 504
09
DC9
SOFTWARE
ASP B:291 , ASP B:335 , SER B:383 , ASP B:432 , HOH B:606 , HOH B:615 , HOH B:661
BINDING SITE FOR RESIDUE CA B 505
10
EC1
SOFTWARE
ILE B:293 , ALA B:337 , ALA B:385 , VAL B:434 , CL B:508 , HOH B:617
BINDING SITE FOR RESIDUE CA B 506
11
EC2
SOFTWARE
ASP B:128 , ASP B:203 , GLU B:205
BINDING SITE FOR RESIDUE CA B 507
12
EC3
SOFTWARE
ILE B:293 , ALA B:337 , ALA B:385 , VAL B:434 , CA B:506
BINDING SITE FOR RESIDUE CL B 508
13
EC4
SOFTWARE
GLU B:133 , LYS B:136 , LYS B:140 , SER B:209 , ASN B:215 , GOL B:513
BINDING SITE FOR RESIDUE GOL B 509
14
EC5
SOFTWARE
HIS B:343 , ASN B:358 , HOH B:690
BINDING SITE FOR RESIDUE GOL B 510
15
EC6
SOFTWARE
PRO A:464 , ASN B:445 , ILE B:448
BINDING SITE FOR RESIDUE GOL B 511
16
EC7
SOFTWARE
ARG A:458 , ILE A:459 , VAL A:460 , ARG A:461 , GLU B:421 , GLY B:426 , ILE B:427 , GLY B:428 , HOH B:625
BINDING SITE FOR RESIDUE GOL B 512
17
EC8
SOFTWARE
LYS B:140 , ASN B:215 , TYR B:246 , GLY B:248 , LYS B:249 , SER B:250 , PHE B:252 , GOL B:509
BINDING SITE FOR RESIDUE GOL B 513
18
EC9
SOFTWARE
LYS B:380 , SER B:398
BINDING SITE FOR RESIDUE GOL B 514
19
FC1
SOFTWARE
PRO B:313 , LYS B:437 , HOH B:637 , HOH B:658 , PRO D:49 , THR D:50
BINDING SITE FOR RESIDUE GOL B 515
20
FC2
SOFTWARE
LYS B:234 , ASP B:235 , PRO B:236 , HOH B:687
BINDING SITE FOR RESIDUE PGO B 516
21
FC3
SOFTWARE
TYR B:195 , ASP B:198 , HIS B:200
BINDING SITE FOR RESIDUE PGO B 517
22
FC4
SOFTWARE
PRO B:376 , GLU B:378 , GLN B:401
BINDING SITE FOR RESIDUE PGO B 518
23
FC5
SOFTWARE
SER B:146 , THR B:149 , PRO B:150 , LEU B:151 , HOH B:715
BINDING SITE FOR RESIDUE PGO B 519
24
FC6
SOFTWARE
HIS B:232 , SER B:233 , LYS B:234 , PRO B:242 , PEG D:101
BINDING SITE FOR RESIDUE PGO B 520
25
FC7
SOFTWARE
THR B:110 , LYS B:112 , SER B:114 , GLY B:192 , HOH B:708
BINDING SITE FOR RESIDUE PGO B 521
26
FC8
SOFTWARE
TYR B:435 , LYS B:437 , GLN B:449 , MET B:463
BINDING SITE FOR RESIDUE PGO B 522
27
FC9
SOFTWARE
MET B:253 , PRO B:255 , PRO B:278 , ARG B:306
BINDING SITE FOR RESIDUE PGO B 524
28
GC1
SOFTWARE
HIS B:340 , HIS B:387 , ASP B:407 , HOH B:691
BINDING SITE FOR RESIDUE PGO B 525
29
GC2
SOFTWARE
ARG B:297 , ASP B:344
BINDING SITE FOR RESIDUE PGO B 526
30
GC3
SOFTWARE
ASP B:282 , ASP B:285
BINDING SITE FOR RESIDUE PGO B 527
31
GC4
SOFTWARE
SER B:211 , THR B:245 , TYR B:246 , HOH B:712 , HIS D:48
BINDING SITE FOR RESIDUE PEG B 528
32
GC5
SOFTWARE
TYR B:104 , HOH B:669
BINDING SITE FOR RESIDUE PEG B 529
33
GC6
SOFTWARE
PRO B:236 , PHE B:241 , ILE B:243 , THR B:245 , GLN B:314 , LEU B:322 , SER B:325 , HOH B:624 , HOH B:692
BINDING SITE FOR RESIDUE PEG B 530
34
GC8
SOFTWARE
PRO B:242 , PGO B:520 , ARG D:44 , SER D:45 , TYR D:47 , HOH D:206 , HOH D:210
BINDING SITE FOR RESIDUE PEG D 101
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Protein & NOT Site
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